General information for g3681.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Proton-coupled amino acid transporter-like protein pathetic.
Parent gene
- The parent gene g3681 is located on chr_3: 27393447..27394647 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_3 | g3681 | g3681.t16 | TSS | g3681.t16 | 27386206 | 27386206 |
| chr_3 | g3681 | g3681.t16 | isoform | g3681.t16 | 27386221 | 27394647 |
| chr_3 | g3681 | g3681.t16 | exon | g3681.t16.exon1 | 27386221 | 27386231 |
| chr_3 | g3681 | g3681.t16 | exon | g3681.t16.exon2 | 27390194 | 27390365 |
| chr_3 | g3681 | g3681.t16 | exon | g3681.t16.exon3 | 27391844 | 27391988 |
| chr_3 | g3681 | g3681.t16 | exon | g3681.t16.exon4 | 27392559 | 27393108 |
| chr_3 | g3681 | g3681.t16 | exon | g3681.t16.exon5 | 27393235 | 27393325 |
| chr_3 | g3681 | g3681.t16 | cds | g3681.t16.CDS1 | 27393259 | 27393325 |
| chr_3 | g3681 | g3681.t16 | exon | g3681.t16.exon6 | 27393449 | 27394647 |
| chr_3 | g3681 | g3681.t16 | cds | g3681.t16.CDS2 | 27393449 | 27394068 |
| chr_3 | g3681 | g3681.t16 | TTS | g3681.t16 | NA | NA |
Sequences
>g3681.t16 Gene=g3681 Length=2168
CGCCAACTGAAATTAATTTAAAAAAGCAACGCTAAAATGGTAAATGTAAGTTACTAAATC
TTAAAAAGTCTTTACAAATTATTTAAAACAAATTTAATTTTCTTGAAAATAGGAATATAC
TGGTCCCCCACCTCAAGAACTCGAAACATTTATATCAAAAGACCAAAAGAATGGATCTTC
AACGTACAAAATTGCACCCGCAACAAATGTCGAGAAAGGAATTTTATCGGATTATGATCC
TTTCAAAGAAAGGAAAGTAGATCATCCTACGTCAGATATGGATACATTGACTCATTTATT
GAAAGCATCACTTGGCACTGGAATATTGGCAATGCCATTGGCATTTAGCTATTCTGGTTT
AGTGACAGGTATTTTTGCAACTATTCTGACGGCGCTTATATGTACTCACTGCGCCTATAT
CCTTGTTAAATGCAGTCATTCATTATATTACCGCACTCGAAGGTCAACAATGAACTTTTC
TGAAGTAGCAGAAGCAGCTTGTTTAAATGGACCTGCGTGGGCACGTCCATGGGCACAATT
TCTAAAGCATTTCATCAATTATGGTCTCTTCATTACATATTTTGGAACATGTTCCGTATA
TACAGTGATTATTGCTGAAAATTTTCAACAAATTATTCAACATTACACTGAATGGAATGT
CGATGTTCGTGTTTATATTGCAATTTTATTAATCCCATTGATTTTATTGTCATGGGTACC
AAATCTCAAGTATCTTGCACCATTCTCTTCTGTGGCTAACATATTCATGGGAATTGGATT
ATTGATAACATTTTACTATTGCGTAACAGATATGCCAAACATTAGTGAACGTGAAATGCA
TACATCATTATTGCAAATCCCGCCATTCTTTGGAATAATAAATTAAGGCAATAGGAGTTG
TAATGCCGCTTGAAAATTCTATGAAAACACCTAAGCACTTCATTGGAATCTGTGGTGTAT
TAAATCAAGGTATGAGCGGTGTAACTTTGGTTTATATTCTACTCGGTTTCGTTGGTTATG
TAAAATATGGAAATGAAGCAAAAGGATCAATAACATTGAATTTACCTATAGAGGATTTAG
CAGCACAAACTGTGAAAATTTTAATTGCATTAGCTGTTTATTGTACATTTGGTCTTCAAT
TTTATGTCTGCCTTGAAATTGGATGGGATTTTATTAAAGATAAATTTAGAAAACGTCCTT
TGCTAGTTAACTACATGATGAGAACAGTTCTTGTTACTGCCGCTGTCTTACTTGCTGTCG
CTGTGCCTACAATTGGACCTTTTGTTGGCTTACTCGGTGCCTTCTGTTTCTCAATTCTGG
GATTACTCGTGCCTGTACTTATTGAAATGATTACATACTGGGATGAAGGATTTGGAAAAT
TGAACTGGATAATTTGGAAAAATGTAATTGTTTGCATTTTTGGAATTCTTGCTCTTGTTT
TTGGTTCAAAGGATGCAATAGCTGATATTATGAAAATGTATAATGAAAACCCAAGTGCTG
ATAATGCAACAACAATATTAGCTATCACAAATATGAATGAAATAGTAGAAGAACTCACCA
CACTATTACCAACTACTACAGGTGTTTGAAAAAAAGCAAGTCATAAACTCCGGCATCATT
TAACGTATTTGAATTTTTTTCTCAATATAAATTTTCATCATATGCAGCGAATATTCTTTA
AATAACATATTGTAGTTAAAATTAAGATGCTGCCTAGATAGGTAGATATAGGCTTTAGTT
ATTTTAAAAAACTGCTTTTACAACTATAAAATGTTCAGGTTCAGCACAGAAAGTGTTAGG
TTTTTGTGATTTTCTAAGCTGATCAAAAACAAAAGTAAAAATGAATTAAAAGACTTGTTA
AATTTTATATTTTTCTTCTTATTTTAGTAAAATTAAAGTAGTTTATCAGTTTATTATTAT
ATCAATAAATCACTTGATTTCGAAATCCCATTAAAATTTTTTGATATAACTTTTAAAACT
ATCGGTTCTAACATTTGAAAGAATAAAACAAAACTTTATAGAAATGAATTAAGAACTGTA
TTTTTGTGAAATTTCAGATTCGATTTAAAACATCAAATTATCATAGTAGATTTTTTTTAT
ACTTGATAAATCTGTCTCTATAGTTAATACTATGGAATGAACAATTTTTTTATATATTTA
ATTCATTT
>g3681.t16 Gene=g3681 Length=228
MPLENSMKTPKHFIGICGVLNQGMSGVTLVYILLGFVGYVKYGNEAKGSITLNLPIEDLA
AQTVKILIALAVYCTFGLQFYVCLEIGWDFIKDKFRKRPLLVNYMMRTVLVTAAVLLAVA
VPTIGPFVGLLGAFCFSILGLLVPVLIEMITYWDEGFGKLNWIIWKNVIVCIFGILALVF
GSKDAIADIMKMYNENPSADNATTILAITNMNEIVEELTTLLPTTTGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3681.t16 | PANTHER | PTHR22950 | AMINO ACID TRANSPORTER | 1 | 193 | 5.8E-99 |
| 3 | g3681.t16 | PANTHER | PTHR22950:SF154 | PROTON-COUPLED AMINO ACID TRANSPORTER-LIKE PROTEIN PATHETIC | 1 | 193 | 5.8E-99 |
| 1 | g3681.t16 | Pfam | PF01490 | Transmembrane amino acid transporter protein | 2 | 183 | 1.9E-32 |
| 8 | g3681.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 15 | g3681.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 39 | - |
| 11 | g3681.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 40 | 58 | - |
| 18 | g3681.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 84 | - |
| 10 | g3681.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 103 | - |
| 14 | g3681.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 124 | - |
| 13 | g3681.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 129 | - |
| 17 | g3681.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 150 | - |
| 9 | g3681.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 16 | g3681.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 12 | g3681.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 228 | - |
| 6 | g3681.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g3681.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 88 | - |
| 7 | g3681.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 143 | - |
| 4 | g3681.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 163 | 182 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
